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2007 IEEE International Conference on Services Computing - Workshops (SCW 2007), 9-13 July 2007, Salt Lake City, Utah, USA
In IEEE SCW
2007BibTex

A 'Stress Management' System: Computational knowledge representation of experiments that delineate neural circuits and histochemical expression patterns based on the primary literature and raw dataBurns, GAPC, Khan, A. M., Cheng, W. C., Watts, A. G.
In 2005 Workshop on the Neuroendocrinology of Stress
2005BibTex

A computational knowledge representation for physiological experiments with direct links to the primary literature and raw dataBurns, GAPC, Khan, A. M., Cheng, W-C, Watts, A. G.
In Annual Meeting of the Society for Neuroscience
2005BibTex

A lightweight Ontology Design Pattern to curate and represent experimental variables from vaccine protection studies.Gully A. P. C. Burns, Dave, Drashti
In Vaccine and Drug Ontology in the Study of Mechanism and Effect, ICBO 2012
2012
http://www.isi.edu/sites/default/files/users/burns/bmkeg/icbo2012-06-28-12-1349-drashti.pdfBibTex

A snapshot of neuroscience: unsupervised natural language processing of abstracts from the Society for Neuroscience 2006 annual meetingBurns, GAPC, Herr, B, Newman, D., Ingulfsen, T., Pantel, P, Smyth, P.
In Annual Meeting of the Society for Neuroscience
2007, 100.6 / XX26 pages
http://f1000.com/posters/browse/summary/1092223BibTex

Advanced database methodology for the Collation of Connectivity data on the Macaque brain (CoCoMac)Stephan, KE, Kamper, L., Bozkurt, A., Burns, G. A., Young, M. P., Kotter, R.
In Philos Trans R Soc Lond B Biol Sci
2001, 1159-86 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11545697BibTex

An example of a neuroinformatics knowledge model derived from the primary literature: Catecholaminergic regulation of hypothalamic paraventricular neuroendocrine neuronsBurns, G., Khan, A. M.
In Annual Meeting for the Society for Neuroscience
2003, 758.2 pagesBibTex

An Overview of Sangam: A System for Integrating Data to Investigate Stress-Circuitry-Gene CouplingSaxena, M, Kim, S, Burns, GAPC, Khan, AM., Su, J, Hamadi, Y, Ghandeharizadeh, S.
In IVNET, submitted
2005BibTex

Analyses over multiple scientific text corpora: combining MEDLINE, CRISP and the proceedings of the annual meetings of the Society for NeuroscienceBurns, G. A., Newman, D., Herr, B, Holloway, A., Smyth, P., Borner, K.
2008BibTex

Analysis of connectivity: neural systems in the cerebral cortexYoung, M. P., Scannell, J. W., Burns, G. A., Blakemore, C.
In Rev Neurosci
1994, 227-50 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=7889215BibTex

Analysis of the connectional organization of neural systems associated with the hippocampus in ratsBurns, G. A., Young, M. P.
In Philos Trans R Soc Lond B Biol Sci
2001, 55-70 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=10703044BibTex

Anatomical connectivity defines the organization of clusters of cortical areas in the macaque monkey and the catHilgetag, C. C., Burns, G. A., O'Neill, M. A., Scannell, J. W., Young, M. P.
In Philos Trans R Soc Lond B Biol Sci
2000, 91-110 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=10703046BibTex

Biocuration Workflow Catalogue - Text Mining for the Biocuration WorkflowBurns, GAPC, Krallinger, M., Cohen, K. B., Wu, C. H., Hirschman, L.
In 3rd International Biocurators Meeting
2009BibTex

Biomedical knowledge engineering approaches driven by processing the primary experimental literature.Burns, GAPC, Hovy, E., Ingulfsen, T.
In Frontiers in Neuroinformatics. Conference Abstract: Neuroinformatics 2008
2008
http://bmkeg.isi.edu/files/INCF-2008-burns-poster.pdfBibTex

Biomedical knowledge engineering tools based on experimental design: a case study based on neuroanatomical tract-tracing experimentsGully A. P. C. Burns, Thomas A. Russ
In K-CAP
2009, 173-174 pagesBibTex

Biomedical Knowledge Engineering tools based on Experimental Design: a case study based on neuroanatomical tract-tracing experimentsBurns, GAPC, Russ, T.
In KCAP 2009
2009BibTex

BioScholar: A knowledge engineering system for biology and it's application to neural connectivity data.Burns, GAPC, Russ, T., Ingulfsen, T., Hovy, E.
In 2nd Congress of the International Neuroinformatics Coordinating Facility (INCF2009)
2009BibTex

Bottom-up curation of terminology for experimental variables: the Ontology of Experimental Variables and Values (OoEVV)Gully A. P. C. Burns, Jessica A. Turner
In Bio-Ontologies SIG, ISMB
2012
http://www.isi.edu/sites/default/files/users/burns/bmkeg/ooevvFlash-final.pdfBibTex

Building the Scientific Knowledge Mine (SciKnowMine1): a community-driven framework for text mining tools in direct service to biocurationRamakrishnan, Cartic, Jr., William A. Baumgartner, Blake, Judith, Gully A. P. C. Burns, Cohen, K. Bretonnel, Drabkin, Harold, Eppig, Janan, Hovy, Eduard, Hsu, Chun-Nan, Hunter, Lawrence E., Tommy Ingulfsen, Livingston, Kevin, Onda, Hiroaki 'Rocky', Pokkunuri, Sandeep, Riloff, Ellen, Roeder, Christophe, Verspoor, Karin
In Language Resources and Evaluation (LREC)
2010BibTex

Computational analysis of functional connectivity between areas of primate cerebral cortexStephan, KE, Hilgetag, C. C., Burns, G. A., O'Neill, M. A., Young, M. P., Kotter, R.
In Philos Trans R Soc Lond B Biol Sci
2000, 111-26 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=10703047BibTex

Database of NIH grants using machine-learned categories and graphical clusteringEdmund M. Talley, David Newman, Mimno, David, Herr, Bruce W, Wallach, Hanna M, Gully A. P. C. Burns, Leenders, A G Miriam, McCallum, Andrew
In Nature Methods
2011, 8(6):443-444 pages
http://dx.doi.org/10.1038/nmeth.1619BibTex

Extracting and managing model parameters from the literature.Burns, G.
In World Assocation of Modellers, Biologically Accurate Modeling
2005BibTex

Extracting Data Records from Unstructured Biomedical Full TextFeng, D., Burns, G., Hovy, E.
In The Joint Meeting of Conference on Empirical Methods in Natural Language Processing and Conference on Computational Natural Language Learning (EMNLP-CoNLL 2007)
2007BibTex

Guided Incremental Construction of Belief NetworksSutton, C., Burns, B., Morrison, C. T., Cohen, P. R.
In The Fifth International Symposium on Intelligent Data Analysis (IDA 2003).
2003BibTex

Histochemical studies of stress-activated paraventricular hypothalamic neuroendocrine neurons: a neuroinformatics-based digital lab notebook to relate the primary literature to raw, unpublished dataKhan, A. M., Cheng, W. C., Watts, A. G., Burns, GAPC
In Society for Neuroscience Annual Meeting
2004BibTex

Infrastructure for Annotation-Driven Information Extraction from the Primary Scientific Literature: Principles and PracticeGully Burns, Donghui Feng, Tommy Ingulfsen, Eduard H. Hovy
In 2007 IEEE International Conference on Services Computing - Workshops (SCW 2007), 9-13 July 2007, Salt Lake City, Utah, USA
2007, 122-129 pagesBibTex

Infrastructure for Annotation-Driven Information Extraction from the Primary Scientific Literature: Principles and PracticeBurns, G., Feng, D., Ingulfsen, T., Hovy, E.
In 1st IEEE International Workshop on Service Oriented Technologies for Biological Databases and Tools (SOBDAT 2007)
2007BibTex

Intelligent Approaches to Mining the Primary Research Literature: Techniques, Systems, and ExamplesGully Burns, Donghui Feng, Eduard H. Hovy
In Computational Intelligence in Medical Informatics
2008, 17-50 pagesBibTex

Intelligent Approaches to Mining the Primary Research Literature: Techniques, Systems, and ExamplesGully A. P. C. Burns, Donghui Feng, Eduard H. Hovy
In Computational Intelligence in Medical Informatics
2008BibTex

Knowledge Engineering Tools for Reasoning with Scientific Observations and Interpretations: a Neural Connectivity Use CaseRuss, T., Ramakrishnan, C., Hovy, E. H., Bota, M., Burns, GAPC
In BMC Bioinformatics
2011, 12: 351 pages
http://www.biomedcentral.com/1471-2105/12/351BibTex

Knowledge management of the neuroscientific literature: the data model and underlying strategy of the NeuroScholar systemBurns, G. A.
In Philos Trans R Soc Lond B Biol Sci
2001, 1187-208 pages
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11545698BibTex

Knowledge Mechanics and the NeuroScholar Project: A New Approach to Neuroscientific TheoryBurns, GAPC
In Computing the Brain, A guide to Neuroinformatics
2001, 319-335 pagesBibTex

Knowledge synthesis with maps of neural connectivityTallis, M., Thompson, R., Russ, T., Burns, GAPC
In Frontiers in Neuroinformatics
2011, 5:24 pages
http://dx.doi.org/10.3389/fninf.2011.00024BibTex

Layout-Aware Text Extraction from Full-text PDF of Scientific ArticlesRamakrishnan, Cartic, Patnia, Abhishek, Hovy, Eduard, Gully Burns
In Source Code for Biology and Medicine
2012, 7 pages
http://www.scfbm.org/content/7/1/7BibTex

Modelling Functional Magnetic Resonance Imaging (fMRI) Experimental Variables in the Ontology of Experimental Variables and Values (OoEVV)Gully A. P. C. Burns, Jessica A. Turner
In Neuroimage
2013, - pages
http://www.sciencedirect.com/science/article/pii/S1053811913005181BibTex